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pasillaBamSubset

This is the development version of pasillaBamSubset; for the stable release version, see pasillaBamSubset.

Subset of BAM files from "Pasilla" experiment


Bioconductor version: Development (3.19)

Subset of BAM files untreated1.bam (single-end reads) and untreated3.bam (paired-end reads) from "Pasilla" experiment (Pasilla knock-down by Brooks et al., Genome Research 2011). See the vignette in the pasilla data package for how BAM files untreated1.bam and untreated3.bam were obtained from the RNA-Seq read sequence data that is provided by NCBI Gene Expression Omnibus under accession numbers GSM461176 to GSM461181. Also contains the DNA sequence for fly chromosome 4 to which the reads can be mapped.

Author: Hervé Pagès

Maintainer: Hervé Pagès <hpages.on.github at gmail.com>

Citation (from within R, enter citation("pasillaBamSubset")):

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("pasillaBamSubset")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF

Details

biocViews DNASeqData, ExperimentData, Genome, RNASeqData
Version 0.41.0
License LGPL
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Imports
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Suggests pasilla
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Depends On Me
Imports Me
Suggests Me APAlyzer, DEXSeq, GenomicAlignments, GenomicFeatures, GenomicRanges, gmoviz, IRanges, karyoploteR, plyranges, TransView
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package pasillaBamSubset_0.41.0.tar.gz
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Source Repository git clone https://git.bioconductor.org/packages/pasillaBamSubset
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/pasillaBamSubset
Package Short Url https://bioconductor.org/packages/pasillaBamSubset/
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